genome.fa.s12.2.7.7.80.10.50.1000.45.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   

This is table  45  of  120  ( 14336 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12143154--12143221	35	1.9	35	96	0	127	41	23	10	25	1.86
12144776--12144826	23	2.2	24	82	3	59	43	5	1	49	1.38
12155679--12155788	39	2.8	39	88	0	166	17	32	18	31	1.94
12158801--12158851	23	2.2	23	92	0	84	41	21	9	27	1.84
12159300--12159338	3	14.3	3	80	20	50	25	0	0	74	0.82
12159300--12159335	8	4.5	8	100	0	72	25	0	0	75	0.81
12159300--12159344	16	2.8	16	90	6	56	24	2	0	73	0.95
12161772--12161800	15	1.9	15	100	0	58	31	13	27	27	1.94
12164132--12164202	36	2.0	36	91	0	115	32	7	19	40	1.79
12168943--12168981	3	13.0	3	100	0	78	66	0	33	0	0.92
12179711--12179739	2	14.5	2	100	0	58	51	0	0	48	1.00
12188161--12188548	195	2.0	195	94	0	686	26	11	28	32	1.91
12191479--12191521	13	3.2	13	83	12	52	23	0	2	74	0.93
12192463--12192499	17	2.2	17	90	0	56	21	10	29	37	1.88
12202645--12202690	24	1.9	24	86	0	65	10	26	17	45	1.81
12207921--12207952	15	2.1	15	100	0	64	31	25	18	25	1.98
12214241--12214360	36	3.3	35	69	10	98	30	10	15	43	1.80
12214234--12214376	72	2.0	72	91	0	232	30	10	15	44	1.80
12222010--12222071	30	2.1	29	96	3	115	24	6	20	48	1.73
12223446--12223508	25	2.4	26	78	7	65	44	3	7	44	1.49
12223790--12223836	3	15.7	3	90	0	76	63	0	2	34	1.06
12224644--12224683	17	2.3	18	86	4	55	72	0	7	20	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12226044--12226334	159	1.8	159	86	1	422	29	25	15	29	1.96
12226241--12226364	51	2.5	51	82	6	146	31	23	12	33	1.91
12226331--12226606	50	5.5	50	79	1	329	27	19	19	32	1.96
12226295--12226611	100	3.2	100	91	0	501	27	20	19	32	1.96
12226244--12226606	150	2.4	150	78	2	361	28	20	18	31	1.96
12227830--12227871	18	2.4	18	77	18	52	0	23	0	76	0.79
12227837--12227879	18	2.4	18	80	7	52	2	20	0	76	0.89
12233058--12233200	72	2.0	72	88	2	216	37	17	16	29	1.91
12233655--12233708	25	2.1	26	82	3	65	42	3	9	44	1.54
12233991--12234026	3	12.0	3	87	0	54	61	0	2	36	1.11
12242022--12242093	38	1.9	37	83	10	94	43	2	6	47	1.45
12242089--12242134	16	2.9	16	78	12	51	45	0	2	52	1.13
12242029--12242239	107	2.0	108	93	0	361	43	1	5	49	1.36
12242196--12242237	15	2.7	16	82	14	52	45	0	2	52	1.13
12242187--12242228	15	2.9	15	82	10	52	47	0	0	52	1.00
12242365--12242469	44	2.5	40	76	15	113	31	29	4	34	1.78
12242363--12242472	45	2.6	44	81	8	131	31	29	5	33	1.80
12242453--12242504	16	3.2	16	94	0	86	34	36	0	28	1.58
12243029--12243069	14	2.9	14	85	0	55	26	2	19	51	1.59
12246432--12246601	39	4.4	39	78	3	162	43	20	3	32	1.69
12246432--12246607	78	2.2	77	80	5	183	43	21	3	31	1.69
12246499--12246563	22	3.2	22	64	28	61	44	20	3	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12251352--12251425	26	2.9	26	87	2	96	36	21	5	36	1.77
12251513--12251621	36	3.1	36	98	1	211	37	19	2	40	1.66
12265546--12265595	20	2.5	20	86	0	82	38	18	30	14	1.89
12280519--12280571	19	2.8	18	81	15	63	79	15	5	0	0.91
12280519--12280576	9	6.1	9	74	9	53	79	15	5	0	0.90
12280516--12280571	18	3.0	19	80	12	71	76	14	8	0	1.00
12282096--12282278	43	4.2	43	87	2	233	28	14	26	31	1.95
12282507--12282558	26	2.0	26	100	0	104	34	23	19	23	1.96
12282809--12283485	44	15.4	43	64	14	181	29	19	24	26	1.98
12282747--12283417	132	5.1	132	90	0	1020	29	19	23	27	1.98
12282881--12283285	88	4.6	88	68	7	246	30	19	22	27	1.98
12283277--12283505	88	2.6	88	86	3	291	27	21	24	26	1.99
12282747--12283559	264	3.1	260	82	6	935	29	19	24	26	1.99
12285001--12285064	32	2.0	32	100	0	128	21	18	31	28	1.97
12290525--12290609	42	2.0	42	81	2	98	32	21	28	17	1.96
12290598--12290675	39	2.0	40	94	2	140	39	16	21	21	1.92
12290732--12291071	41	8.3	41	80	6	334	20	18	28	32	1.96
12290730--12291071	82	4.2	82	82	6	372	21	18	28	31	1.96
12290730--12291071	123	2.8	123	86	4	469	21	18	28	31	1.96
12291413--12291501	21	4.2	21	65	7	54	25	1	35	37	1.64
12291717--12291757	21	2.0	20	85	4	55	19	0	41	39	1.52
12291746--12291793	22	2.2	22	85	7	62	18	2	41	37	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12291771--12291804	14	2.4	14	90	9	52	26	2	41	29	1.70
12292245--12292350	42	2.6	40	83	7	140	33	20	19	26	1.97
12295555--12295696	43	3.3	41	84	4	169	22	18	30	28	1.97
12302009--12302044	5	7.2	5	100	0	72	41	19	19	19	1.90
12303066--12303102	9	4.1	9	92	0	65	29	10	13	45	1.77
12303156--12303186	9	3.4	9	90	0	53	38	22	12	25	1.90
12326094--12326151	27	2.1	28	84	9	75	39	1	3	55	1.27
12330041--12330073	14	2.3	15	89	5	50	27	15	33	24	1.95
12331580--12332159	88	6.7	88	81	8	623	26	22	26	23	2.00
12331728--12332156	166	2.5	168	89	4	621	25	23	27	24	2.00
12331897--12332113	44	4.9	45	66	6	122	27	23	25	23	2.00
12332186--12332334	44	3.4	44	85	4	185	30	16	25	27	1.96
12331903--12332289	176	2.2	176	81	2	420	27	21	26	24	1.99
12334168--12334200	2	16.5	2	100	0	66	48	0	0	51	1.00
12336615--12336711	41	2.4	41	89	0	158	18	20	28	31	1.96
12336780--12336831	25	2.1	25	96	0	95	44	11	23	21	1.84
12348513--12348554	9	4.6	9	84	3	57	73	11	7	7	1.23
12353041--12353082	9	4.5	10	80	14	54	71	11	9	7	1.31
12371344--12371511	91	1.8	91	96	0	309	47	2	2	47	1.30
12371341--12371486	44	3.2	46	69	20	128	46	2	2	49	1.25
12371661--12371706	16	2.9	16	78	12	51	45	0	2	52	1.13
12371596--12371811	107	2.0	109	92	3	366	43	1	4	50	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12371742--12371789	18	2.8	18	74	22	50	43	0	0	56	0.99
12371742--12371809	16	4.2	16	74	20	54	44	0	1	54	1.09
12371954--12372044	45	2.0	44	87	6	130	35	27	5	31	1.80
12375574--12375634	6	10.0	6	82	3	68	36	18	13	32	1.89
12375654--12375698	13	3.4	13	79	14	56	51	15	15	17	1.77
12379052--12379095	23	1.9	23	81	9	54	43	0	20	36	1.52
12381565--12381607	22	2.0	22	85	0	59	30	2	2	65	1.18
12386958--12386998	18	2.3	18	100	0	82	36	21	26	14	1.93
12401778--12401893	51	2.3	51	86	0	151	29	17	6	47	1.71
12401777--12401926	51	2.7	55	72	12	137	31	17	7	44	1.76
12402926--12402950	13	1.9	13	100	0	50	40	0	0	60	0.97
12405272--12405304	16	2.0	17	88	5	50	69	12	9	9	1.36
12406755--12406785	5	6.0	5	96	3	53	19	0	0	80	0.71
12414087--12414206	61	2.0	62	83	5	154	40	7	15	37	1.75
12419921--12420069	77	1.9	76	86	4	210	33	4	16	46	1.65
12432463--12432815	180	2.0	180	88	1	528	30	16	15	36	1.90
12432964--12433031	29	2.3	29	85	5	84	26	20	17	35	1.95
12435324--12435691	68	5.5	68	80	6	358	23	19	19	37	1.94
12435321--12435691	135	2.7	136	84	5	459	23	19	19	37	1.94
12435324--12435694	67	5.5	67	82	3	415	23	19	19	37	1.94
12444058--12444085	6	4.7	6	100	0	56	14	0	0	85	0.59
12444154--12444190	19	2.0	18	89	5	56	24	0	8	67	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12456444--12456866	44	9.6	44	73	10	280	28	20	23	27	1.99
12456485--12456872	129	2.9	132	87	3	473	29	19	23	27	1.98
12456444--12456826	89	4.4	88	73	13	224	28	20	24	27	1.99
12458658--12458705	21	2.4	20	86	13	64	12	4	4	79	1.02
12458793--12458834	19	2.2	20	82	4	50	30	9	11	47	1.72
12460732--12460771	18	2.2	18	100	0	80	55	15	22	7	1.65
12464706--12464770	23	2.8	23	85	0	76	52	7	4	35	1.51
12467489--12467556	27	2.5	27	97	0	127	30	13	22	33	1.92
12468709--12468748	16	2.5	16	91	0	62	40	2	32	25	1.69
12468943--12468975	7	4.7	7	100	0	66	54	0	0	45	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120